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9 Open 16 Closed
9 Open 16 Closed
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Issues list

Load custom genomes in addition/instead of NCBI
#25 opened Oct 29, 2022 by hermidalc
Add known human contaminant sequences in microbe genomes to decoys or host filtering steps enhancement New feature or request
#24 opened Oct 19, 2022 by hermidalc
Finish SLURM setup so that workflow can get submitted to different nodes instead of running on one large node enhancement New feature or request
#23 opened Oct 16, 2022 by hermidalc
Functionality to automatically collapse functional terms to larger pathways and associated read counts for appropriate functional DBs (i.e. GO, EC) enhancement New feature or request
#22 opened Oct 16, 2022 by hermidalc
Input read host and decontaminant sequence filtering with HISAT2 (DNA, RNA) and STAR (RNA) enhancement New feature or request
#21 opened Oct 6, 2022 by hermidalc
Use tximport-like approach to summarize Cedar abundance by functional ID enhancement New feature or request
#19 opened Jul 10, 2022 by hermidalc
@hermidalc
Cedar EM uncertainty/confidence scores enhancement New feature or request
#17 opened Jul 10, 2022 by hermidalc
Map and summarize BAM read counts per CDS protein ID to functional DB IDs enhancement New feature or request
#15 opened Jul 10, 2022 by hermidalc 0.1
@hermidalc
Input RNA-seq ribosomal and structural RNA filtering (e.g. with SILVA) enhancement New feature or request
#6 opened Jul 10, 2022 by hermidalc
@hermidalc
ProTip! Exclude everything labeled bug with -label:bug.